<html><head><title>simulating Linkage Group Selection (LGS)</title>
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<h1>simulating Linkage Group Selection (LGS)
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<h2>Help pages for package &lsquo;LGS&rsquo; version 0.91</h2>


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<tr><td width="25%"><a href="LGS-package.html">LGS-package</a></td>
<td>LGS: A package to simulate Linkage Group Selection </td></tr>
<tr><td width="25%"><a href="biasLGS.html">biasLGS</a></td>
<td>Bias a vector of allele ratios (LGS) </td></tr>
<tr><td width="25%"><a href="bottleneck.html">bottleneck</a></td>
<td>Samples a population to simulate a bottleneck </td></tr>
<tr><td width="25%"><a href="crossLGS.html">crossLGS</a></td>
<td>Perform advanced crosses </td></tr>
<tr><td width="25%"><a href="DataStructure.html">DataStructure</a></td>
<td>Data structure of LGS output </td></tr>
<tr><td width="25%"><a href="exp2JoinMap.html">exp2JoinMap</a></td>
<td>Make input file for JoinMap </td></tr>
<tr><td width="25%"><a href="haplo2string.html">haplo2string</a></td>
<td>Convert haplotypes to strings </td></tr>
<tr><td width="25%"><a href="LGS-package.html">LGS</a></td>
<td>LGS: A package to simulate Linkage Group Selection </td></tr>
<tr><td width="25%"><a href="normPop.html">normPop</a></td>
<td>Normalize populations </td></tr>
<tr><td width="25%"><a href="pcMap.html">pcMap</a></td>
<td>A map file for Plasmodium chabaudi </td></tr>
<tr><td width="25%"><a href="plotBins.html">plotBins</a></td>
<td>Plot z-scores of bins of markers </td></tr>
<tr><td width="25%"><a href="plotLGS.html">plotLGS</a></td>
<td>Plot the output of a LGS experiment as a genome scan </td></tr>
<tr><td width="25%"><a href="repLGS.html">repLGS</a></td>
<td>Replicate LGS experiments </td></tr>
<tr><td width="25%"><a href="selClones.html">selClones</a></td>
<td>Reproduce clonally and select a population </td></tr>
<tr><td width="25%"><a href="selDepth.html">selDepth</a></td>
<td>Find depth of a selection valley </td></tr>
<tr><td width="25%"><a href="simLGS.html">simLGS</a></td>
<td>Simulate crosses and apply selection </td></tr>
<tr><td width="25%"><a href="summaryLGS.html">summaryLGS</a></td>
<td>Summary statistics of an LGS object </td></tr>
<tr><td width="25%"><a href="topClones.html">topClones</a></td>
<td>Count the most represented clones</td></tr>
<tr><td width="25%"><a href="zbins.html">zbins</a></td>
<td>z-score: Assessing selection </td></tr>
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